MmuINT0021513 @ mm9
Intron Retention
Gene
ENSMUSG00000038600 | Atp6v0a4
Description
ATPase, H+ transporting, lysosomal V0 subunit A4 [Source:MGI Symbol;Acc:MGI:2153480]
Coordinates
chr6:38026686-38028958:-
Coord C1 exon
chr6:38028746-38028958
Coord A exon
chr6:38026837-38028745
Coord C2 exon
chr6:38026686-38026836
Length
1909 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGA
5' ss Score
7.23
3' ss Seq
TCACTTTGTTCTTTCTGCAGGAA
3' ss Score
11.67
Exon sequences
Seq C1 exon
GTCATTACCCAAACAGAGTCTCACCGACAGCGCCTGCTGCAGGAAGCAGCTGCCAACTGGCACTCCTGGGTCATCAAAGTACAGAAGATGAAGGCCGTCTACCATGTGCTGAACATGTGCAACATTGACGTCACCCAGCAGTGCATCATTGCCGAGATCTGGTTCCCAGTAGCAGACACTAGACACATTAAGAAGGCCCTGGAGCAAGGCATG
Seq A exon
GTGAGAGGCAGGGGCAGCTGGGGATGGGGCAAGTCACGTCCAGCCTCCCCAGCCCCTTGCTTGTTCTTTCTGGGACTGAGAACTTCACAGGTGGCTTTGTGGTAGGACTGACGCTCTCTCGTACCTTCAGTACCTTTTAAAAAAATTGAGACCCAAAAAGTGCCCGAGGGATGGCACTCGGTACTTGATAGGTGAGGATAATTGCATCATCCAAGCCCAGGCAGGACAGCGTCTCATGCCATGCAAGGCCTCACGGAACTATACTTGGGGCCAGAGTGAGCCACAAGGGGGAATGGGCTCTGTGAAGAGGAGAGCTGGAGTTCCTGCTGGAGAATGCGATTGCTTGCTTGCTTGGATCATGGCATGGGGTAATAGGATGGTGAACCTCATTGGGGAGAGGACTGGGGTGGAGGAAAGCTGATCTGACTGAGAGGGAGCCAGCTGGGAGATGGGAAGACTTTGGCGAGGCAGGTGGAAGCTCTGTGACACTGGAGACCCTGTCTCAGTGTAGAGTCGTCCTGTGTTACAATAAAGCTAAGCTTCCTATGAGGCTGGCTAGAGCAGTTTCTTCAGTCTTCCGGGTTGTCACAGGCGTTTTCCCACACAGGAGTGGAAGGCCTCGTGTGGGTAGGAGGCAGAGGGAAGCATGAAGAGAGAACAGATCCTAGATACTGTCATCACCATCAACATAATCCCTTGTGGCCTCTGCCAGCCTCTGTGTCAGCTGCCATGGGGTGTGTGTGAGAAGGAGTGAAGGCTTCAGGCCTTGCTGCTAAGGAGGTGACTCCCATTCCTCCTCAAGAACACAGTGAGAAACCACTCCATCTGCTCTATGACCTGGAACAGTTGCTTAACTCTGCTATGCCACAGTTTCTTCATCTCTAAAATGGGTTTGTCTTGAGGTGTACCTCCTGACAACATCAGGGGAACTGAGACTAAACTCTTTAAAGACCTTTGTTGTTGGTATAGTCCCACTCAAAGCACCTCTGACGGTTGCCATGGTGATGTGGAGTAGTGGGATGGAGCACACAGAGAATTGTGAAGACCTGGGCACCTGGAGAGGTGGCTTTGAAATCTTAGTTTCCATGAGAAGTGGGTTATGAAGGTGGCAGTGGAGGATTAAGTCAACCTTGCACAGAAGCCTGCCCTCTGACAATGTTTTGACTTCACTCTTTAGACCATAGGAAGCTTTGAAGAACAATGCCCTTGGTTTGTTTTATCCCAGACATGACTGGGCAGAGTGGGTGGGTGAAGTCAGCAGAAGAACTAAGGCTGGAGGGGATGGTGAGGCCCGACTAGGGTGGCAACCCATAGAATAGGAGCCAGGACTCCAGAGAGAAATATTGATCTGGAATGATGGCCACTAAGTCAGAAGGGACAGAACAAGAATCTGAGGAAATGGAGGATCTGAGAAATGACAGGGTACAAGGAGGACCTAGCTGGGGCAAGTTGGTGATTCACCTATAGGCAGCTGGATTTTCTAGAGCTTTTAGGTCAGGAAAACCTACTGGGCAGTCAGAAAAGACATGTGGGAGAAAGCTTATGACACCTTGAAAGATAAGGATGAGTTAGCAAAGTGGCTGAGTTTCTGAAGGAAAAGGTGGAGGAGGAAGAGTAGAGAACCTAGAGCTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTACATATGTATGTATATGTGCACACGCGTGTGTTGGGGATGGGGGAAGATGGCCAGAGAACCAGGATGGGCTCCGAGTTTTTGATACTCTCATGTAAGAGATATTAGGTAAGCATTGAGACACATTTCCTTTCATAGTTCTCTGGGAGGTCAGGAGATGACCCAAGTTCATGTCCAGATCTTTGTGCCAGCAATCAGCTCTCCTCCATGGGCATTGGTCACTTTGTTCTTTCTGCAG
Seq C2 exon
GAACTCAGTGGCTCCTCCATGATTCCCATCATGACAGAAGTGGAAACTAAAACAGACCCTCCCACCTTCAACAGGACGAATAAATTTACAGCTGGCTTCCAGAACATTGTTGATGCGTATGGTGTAGGTAGCTACCGAGAGATAAACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSMUSG00000038600-Atp6v0a4:NM_080467:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0149614=V_ATPase_I=FE(8.8=100)
A:
NA
C2:
PF0149614=V_ATPase_I=FE(6.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACCCAAACAGAGTCTCACCGA
R:
TCTCGGTAGCTACCTACACCA
Band lengths:
347-2256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development
- Muscular differentiation time course
- Spermatogenesis cell types
- Reprogramming of fibroblasts to iPSCs
- Hematopoietic precursors and cell types
Other AS DBs: